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MLST Sequence Typing

The Multi-locus Sequence Type (MLST) provides a finer resolution of microbial identification than 16S identification for applications that require discrimination or organisms within species.The MLST Sequence Type (ST) identity of your samples is determined by sequencing the DNA at 5-10 select and standardized loci in your specimen, determining the allele identity of the sequences and assembling the allelic profile to determine the unique Sequence Type. MLST typing is available for up to 100 bacterial species.

 

The small set of loci sequenced provide a fast and economical way to type your organisms, yet they are selected to represent the whole genome in terms of strain identity and evolution. MLST’s DNA sequence-based typing provides an unambiguous and reproducible identification system that is the common language in microbial identification. MLST is suitable for applications requiring highly discriminatory microbial identification such as epidemiology, contamination detection and tracking, and basic research. Information on origin, pathogenicity, serotype, etc. of isolates of a particular sequence type or neighboring sequence types is also available from public MLST databases.

 

E. coli MLST typing loci

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MLST typing – three resolutions tailored to meet your identification needs

ID Genomics offers standard MLST typing and two adapted versions that may more closely match your identification and/or budget needs.

• Standard MLST analyzes the standard 5-10 loci used in the public typing system.

• Short MLST analyzes 2 of the most variable and representative MLST loci.  Short MLST provides an economical alternative to applications that do not need the full resolution of Standard MLST, yet need the subspecies identification capability of MLST.

• Extended MLST analyzes an additional, highly variable locus in addition to the Standard MLST loci.  This loci is researched by ID Genomics to provide an increased level of discrimination that may be critical for applications.

 

Specialized typing

Specialized typing is available for some species.  See the Price sheet or Contact Us for availability.

S. aureus spa locus typing is available for Stapholococcus aureus identification applications that do not need Short or Standard MLST typing resolution. This typing method sequences the DNA the repeat region of the Staphylococcus protein A (spa) gene. Repeats in the spa region are assigned numerical codes and the codes are assembled into a repeat code sequence or spa-type.

The MLST Process

• Single colony samples can be submitted in culture or DNA format.

• DNA is isolated from culture samples if required

• PCR amplification of the MLST target loci

• The PCR amplicons are sequenced

• Sequence data is viewed and analyzed

• For each specimen, allele numbers are assigned for each loci

• For Full and Extended MLST samples, the assembled sequence types (ST) are assigned.

• Your samples are plotted in a tree diagram which shows their relationship and proximity to each other.

Report and analysis results

Your analysis results are returned to you as the following package.

• MLST Alleles and Sequence Types (STs)

An Excel file showing the assigned alleles for each of your samples.  Sequence type  information is shown for Full and Extended MLST samples.

• Tree diagram

One or more tree diagrams are provided to show the relationship between your samples as determined from the MLST typing.

• Novel allele sequences

Any new allele sequences encountered in typing your samples are provided to you for future reference.